[xcrysden] Cannot show multiple frame in out file

[Yuelin Li]

Thanks again. 

I did try the "latest coordinates" option. xcrysden did not complain, and there is nothing displayed. 

Looks like 1.5 is the solution.  I was not able to install it the last time. I will try again and let you know the result.

Yuelin

  

----- Original Message -----
From: "Gabriele Sclauzero" <sclauzer at sissa.it>
To: "XCrySDen mailing list" <xcrysden at democritos.it>
Sent: Thursday, March 10, 2011 9:56:43 AM
Subject: Re: [xcrysden] Cannot show multiple frame in out file






Il giorno 10/mar/2011, alle ore 16.19, Yuelin Li ha scritto: 



Gabriele, 

thanks for the help. I commented the line you mentioned, but still got the same results. If I force it to read the optimised coordinate, a window pups up and say the following: 

ERROR: while executing exec sh 
..../scripts/pwo2xsf.sh --optcoor 
..../acetylene.out > pwo2xsf.xsf 

I can only guess that pwo2xsf.xsf did not find the optcoor string in the out file. 


I had a look to your input and it's a MD run, not a relaxation, so there are no "optimized" coordinates. 
I tried to run your input and then open the output file with xcrysden 1.5.21 and it could read all the coordinates without any problem. Why are you using 1.4.1? I suggest you to upgrade to the latest version. 


BTW, beware that even if you do a relaxation and use the "display optimized coordinates", it is not likely to work because the string which helped xcrysden identifying the optimized structure was changed in PWscf, but I suspect that the xcrysden has not been updated accordingly. However, if you select "latest coordinates" instead of "optimized coordinates" it works and you should get the same result (if the output file contains a converged relaxation run). 



HTH 


GS 





I believe you are pointing to the right direction, must be some sort of mixing of versions. 

Any other thought? 

Best, 

Yuelin 



----- Original Message ----- 
From: "Gabriele Sclauzero" < sclauzer at sissa.it > 
To: "XCrySDen mailing list" < xcrysden at democritos.it > 
Sent: Thursday, March 10, 2011 1:53:53 AM 
Subject: Re: [xcrysden] Cannot show multiple frame in out file 


I think I met the same problem some time ago. It comes from the fact that xcrysden checks the string of the PWscf version and, if it thinks that the version is an old one, it calls a different script to read the output file. Now, the problem is with the "a" in 4.3a which makes xcrysden think that's an old version. 
If this is your problem you can solve it by commenting the calls to 

pwoCheckPWSCFVersion $option $input 
in scripts/pwo2xsf.sh 


Have fun with XCrysden! I also think it has very nice features. 


Best regards, 




GS 



Il giorno 09/mar/2011, alle ore 19.08, Yuelin Li ha scritto: 



was able to get xcrysden running - beautiful implementation! 

I do have a problem using it when look at out put with multiple atom positions. It looks like xcryden only sees the first frame not the others. If I force it, e.g., on the latest frame, the display is blank, xterm says. 

PWSCF version of the output: 4.3a 
TEXT-WIDGET: .a1.f1.t 
pwOutputPresetWhat: /home/ylli/XCrySDen-1.4.1s/scripts/pwo2xsf.sh --latestcoor /home/ylli/Documents/temp/acetylene.out 
Executing: sh /home/ylli/XCrySDen-1.4.1s/scripts/pwo2xsf.sh --latestcoor /home/ylli/Documents/temp/acetylene.out > pwo2xsf.xsf 
Executing: sh /home/ylli/XCrySDen-1.4.1s/scripts/dummy.sh /home/ylli/Documents/temp/acetylene.out 
Number of Atoms: 0 
Number of Frames: 0 
Estimated number of bonds = 0 
sInfo(dim) = 0; periodic(dim) = 0 


Attached is the in file directly from the tutorial pw examples. 

Please help. Thanks. 

Best, 

Yuelin <acetylene.in> _______________________________________________ 
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§ Gabriele Sclauzero, EPFL SB ITP CSEA 
PH H2 462, Station 3, CH-1015 Lausanne 

_______________________________________________ 
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http://www.democritos.it/mailman/listinfo/xcrysden 
_______________________________________________ 
XCrySDen mailing list 
XCrySDen at democritos.it 
http://www.democritos.it/mailman/listinfo/xcrysden 




§ Gabriele Sclauzero, EPFL SB ITP CSEA 
PH H2 462, Station 3, CH-1015 Lausanne 

_______________________________________________
XCrySDen mailing list
XCrySDen at democritos.it
http://www.democritos.it/mailman/listinfo/xcrysden